#--------------------------------------------
#@# Hippocampal Subfields processing (T1 only) left Mon Apr 18 10:49:08 CEST 2016
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Setting up environment variables
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LD_LIBRARY_PATH is .:/usr/local/freesurfer/MCRv80/runtime/glnxa64:/usr/local/freesurfer/MCRv80/bin/glnxa64:/usr/local/freesurfer/MCRv80/sys/os/glnxa64:/usr/local/freesurfer/MCRv80/sys/java/jre/glnxa64/jre/lib/amd64/native_threads:/usr/local/freesurfer/MCRv80/sys/java/jre/glnxa64/jre/lib/amd64/server:/usr/local/freesurfer/MCRv80/sys/java/jre/glnxa64/jre/lib/amd64/client:/usr/local/freesurfer/MCRv80/sys/java/jre/glnxa64/jre/lib/amd64:
Warning: application is running on a locale different from the original platform locale.
Warning: No display specified.  You will not be able to display graphics on the screen.
Registering imageDump.mgz to hippocampal mask from ASEG
This file does not contain MRI parameters
fixedImageFileName: imageDump.mgz
movingImageFileName: /usr/local/freesurfer/subjects/B_HA_30_MRI_E_T0/tmp/hippoSF_T1_v10_left//hippoAmygBinaryMask_autoCropped.mgz
degreesOfFreedom: 3
numberOfBins: 20
useDefaultSchedule: 1
initialTranslationMode: 2
extraInputImageFileNames: 
Initializing the parameters as follows: [0, -0, 0, -54.104, -70.9115, -45.3863, 1, 1, 1, 0, 0, 0]
Using fixedShrinkFactors: [4, 4, 4]
Shrinking fixed image: 
  0%
  0.999885%
  1.99977%
  2.99965%
  3.99954%
  4.99942%
  5.99931%
  6.99919%
  7.99908%
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  96.9888%
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Using movingShrinkFactors: [1, 1, 1]
Shrinking moving image: 
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Using fixedSchedule: [4, 4, 4]
[1, 1, 1]

Using movingSchedule: [4, 4, 4]
[1, 1, 1]

Using scales: [57.1429, 57.1429, 57.1429, 1, 1, 1, 100, 100, 100, 100, 100, 100]
Using parameterOrder: [0, 0, 0, 1, 2, 3, 0, 0, 0, 0, 0, 0]
Calculating fixed image pyramid: 
  0%
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  100%
Calculating moving image pyramid: 
  0%
  50%
  100%
Doing registration at level 0 of 2
       Iteration 0: value = -0.172259
            Current position: 
                    Rotation: 0  -0  0  
                 Translation: -52.4992  -74.7962  -46.0813  
                     Scaling: 1  1  1  
                     Skewing: 0  0  0  
       Iteration 1: value = -0.174963
            Current position: 
                    Rotation: 0  -0  0  
                 Translation: -53.5146  -75.1748  -46.271  
                     Scaling: 1  1  1  
                     Skewing: 0  0  0  
       Iteration 2: value = -0.175037
            Current position: 
                    Rotation: 0  -0  0  
                 Translation: -53.6281  -75.1859  -46.2604  
                     Scaling: 1  1  1  
                     Skewing: 0  0  0  
       Iteration 3: value = -0.175038
            Current position: 
                    Rotation: 0  -0  0  
                 Translation: -53.627  -75.1858  -46.2638  
                     Scaling: 1  1  1  
                     Skewing: 0  0  0  
       Iteration 4: value = -0.175038
            Current position: 
                    Rotation: 0  -0  0  
                 Translation: -53.6291  -75.186  -46.2638  
                     Scaling: 1  1  1  
                     Skewing: 0  0  0  
PowellOptimizer: Cost function values at the current parameter (-0.175038) and at the local extrema (-0.175038) are within Value Tolerance (0)
Doing registration at level 1 of 2
       Iteration 0: value = -0.0918507
            Current position: 
                    Rotation: 0  -0  0  
                 Translation: -54.1766  -74.7395  -45.8252  
                     Scaling: 1  1  1  
                     Skewing: 0  0  0  
       Iteration 1: value = -0.0929219
            Current position: 
                    Rotation: 0  -0  0  
                 Translation: -54.1743  -75.1903  -45.8252  
                     Scaling: 1  1  1  
                     Skewing: 0  0  0  
PowellOptimizer: Cost function values at the current parameter (-0.0929219) and at the local extrema (-0.0929219) are within Value Tolerance (0)
Wrote out imageDump_coregistered.mgz
mv: overwrite `imageDump.mgz'?